Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 23.96 kDa 
• Atom Count: 1796 
• Residue Count: 218 
• Unique protein chains: 1

1BWW

BENCE-JONES IMMUNOGLOBULIN REI VARIABLE PORTION, T39K MUTANT

• DOI: 10.2210/pdb1BWW/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 1998-09-29 Released: 1998-10-07 
• Deposition Author(s): Uson, I., Pohl, E., Schneider, T.R., Dauter, Z., Schmidt, A., Fritz, H.J., Sheldrick, G.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.221 
• R-Value Observed: 0.181 

Literature

1.7 A structure of the stabilized REIv mutant T39K. Application of local NCS restraints.

Uson, I., Pohl, E., Schneider, T.R., Dauter, Z., Schmidt, A., Fritz, H.J., Sheldrick, G.M.

(1999) Acta Crystallogr D Biol Crystallogr 55: 1158-1167

• PubMed: 10329778 
• DOI: 10.1107/s0907444999003972
• Primary Citation of Related Structures:  
  1BWW


• PubMed Abstract: 
  

The X-ray structure of the T39K mutant of the variable domain of a human immunoglobulin kappa light chain has been determined at room temperature to 1.7 A resolution with a conventional R factor of 0. 182. T39K crystallizes in the triclinic space group P1 [a = 35.4 (1), b = 40.1 (1), c = 43.1 (1) A, alpha = 66.9 (1), beta = 85.4 (1), gamma = 73.8 (1) degrees ]. The unit-cell contains two monomers, related by a non-crystallographic twofold axis. The use of a novel type of local non-crystallographic symmetry restraints on related isotropic displacement parameters and 1-4 distances as incorporated in the refinement program SHELXL improves the model and quality of the maps, but local differences between both monomers in areas subject to different packing contacts can still be observed. 12 overall anisotropic scaling parameters were refined. These may have compensated for the difficulties in accurately scaling single rotation axis image plate data from a triclinic crystal, because of the scarcity of common equivalent reflections. The final model has been used to perform a number of tests on anisotropic scaling, non-crystallographic symmetry, anisotropic refinement, determination of standard uncertainties and bulk solvent correction. It is remarkable that removal of the NCS restraints from the final model caused Rfree to increase. These tests clarify the strategies for optimum use of SHELXL for refinement at medium as opposed to atomic resolution.

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Organizational Affiliation: 

Institut für Anorganische Chemie der Universität Göttingen, Tammannstrasse 4, D37077 Göttingen, Germany. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (IG KAPPA CHAIN V-I REGION REI)	A, B	109	Homo sapiens	Mutation(s): 1  Gene Names: IGKV1D-33
Find proteins for P01593 (Homo sapiens) Explore P01593  Go to UniProtKB:  P01593
NIH Common Fund Data Resources
GTEx:  ENSG00000239975

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.221 
• R-Value Observed: 0.181 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 35.4	α = 66.9
b = 40.1	β = 85.4
c = 43.1	γ = 73.8

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
SHELXL-97	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1998-09-29 
• Released Date: 1998-10-07 
Deposition Author(s): Uson, I., Pohl, E., Schneider, T.R., Dauter, Z., Schmidt, A., Fritz, H.J., Sheldrick, G.M.

Revision History 

• Version 1.0: 1998-10-07
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance